Thanks @maxpietsch!
Since i’m trying to create a multimodal connectome, I do think surface based information is useful for registering the atlas to diffusion space. I used your advice and code provided in this post (Beginner: Connectome pipeline (Updated) - #6 by mblesac) by @ElijahMak to register the atlas in T1 to pts’ diffusion space.
bbregister --s sub-i --mov i_b0_preproc.nii.gz --reg dwi2orig.lta --t2 --init-fsl
lta_convert --inlta dwi2orig.lta --outitk dwi2orig_itk.txt
transformconvert dwi2orig_itk.txt itk_import dwi2orig_itk_mrtrix.txt
mrtransform i_glasser+aseg_good.nii.gz -linear dwi2orig_itk_mrtrix.txt glasser+aseg_good_indwi.nii.gz -inverse -interp nearest
Also, using the regular dash corrected the issue with inverse.
Thanks!
Heena